The invention discloses a comprehensive information management system for a biological sample library, which adopts a B/S (Browser/Server) system architecture and supports multi-account login, and a server is locally arranged and is in butt joint with an HIS (Hospital Information System), an LIS (Local Information System), a PACS (Picture Archiving and Communication System) and a maternal and child health information system; the comprehensive information management system for the biological sample library comprises a scientific research project management module, a specimen information management module, a specimen management module, a quality control management module and a system setting module. Project management and process management online examination and approval of examination and approval processes of collection, preservation, utilization and destruction of human genetic resources are realized, and integration of diagnosis information and five-level electronic medical record information of specimens and patients is realized; quality control parameters are recorded in the system, later quality tracing is facilitated, biological samples can be subjected to substantive standard management, sample information can be subjected to integration and summary statistics, and the management cost is reduced.